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The Western Tropical North Atlantic is a highly dynamic marine system where the Amazon River Plume (ARP) generates a patchwork of environmental conditions that favor different phytoplankton groups. To study phytoplanktonic community structure in such heterogeneous conditions, we used a set of five standard ship-based measurements taken from oceanographic surveys between 2010 and 2021 to characterize different habitat types. We then utilized a variety of multiparametric approaches to examine phytoplankton biodiversity in the different habitats to assess the biological relevance of our delineated habitats. Our approach generated a consistent set of habitat types across cruises carried out in multiple different years and the Amazon’s two predominant (wet and dry) seasons. Our phytoplankton community analyses revealed strong distinctions among all habitats along the plume gradient usingin-vivofluorescence and diagnostic pigments, and clear contrasts of diazotroph community along the mesohaline waters using direct cell-count, a pattern consistent with niche partitioning among similar species. The few apparent mismatches we found between phytoplankton community composition and habitat may reflect recent hydrographic changes driven by mixing and/or upwelling and thus may be a useful index to biologically-relevant temporal variation. Our habitat classification approach is straightforward and broadly applicable in identifying biologically distinct areas within heterogeneous and dynamic regions of the ocean.

Nutrient monitoring is important for informing management decisions to mitigate eutrophication in aquatic systems. Many nutrient monitoring programs use filter pore sizes that allow microorganisms to pass into samples and/or wait extended times between sample collection and filtration/preservation, allowing microbial processes to alter nutrient concentrations. Here, 34 sites were sampled to determine how filter pore size and filtration timing affected measured ammonium (NH₄⁺) and orthophosphate (ortho‐P) concentrations. Three filter pore sizes (0.22, 0.45, and 0.70 μm) were used to filter water immediately upon collection and after 5 and 22 h in a bottle. NH₄⁺and ortho‐P concentrations varied relative to “baseline” measurements (i.e., 0.22 μm, field‐filtered samples), both over time and with different filter pore sizes, and showed no predictable direction of change based on ambient nutrient concentration or trophic status. As expected, larger relative changes occurred with lower ambient concentrations; however, for the entire dataset, samples with > 1 μmol L⁻¹ortho‐P and > 3 μmol L⁻¹NH₄⁺were lower by 11 and 33%, respectively, which would result in reported nutrient concentrations that were not representative of in situ conditions. Whole‐water samples filtered after 22 h varied up to 3070% for NH₄⁺and 480% for ortho‐P from baseline concentrations. Filtering water samples with a 0.22 filter (or 0.45 μm, at worst), immediately upon collection, should be adopted as standard practice to ensure that reported nutrient concentrations represent the most accurate measurement possible. Inconsistent and/or insufficient sampling and sample handling procedures can lead to poorly calibrated models and misinformed management and legislative decisions.